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Anim Biosci > Accepted Articles
https://doi.org/10.5713/ab.21.0517    [Accepted] Published online June 30, 2022.
Genome and chromosome wide association studies for growth traits in Simmental and Simbrah cattle
René Calderón-Chagoya1,2  , Vicente Eliezer Vega-Murillo3  , Adriana García-Ruiz2  , Ángel Ríos-Utrera4  , Guillermo Martínez-Velázquez5  , Moisés Montaño-Bermúdez2,* 
1Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Autónoma de México, Ciudad Universitaria, Ciudad de México 04510, México
2Centro Nacional de Investigación Disciplinaria en Fisiología y Mejoramiento Animal, Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias, Colón, Querétaro 76280, México
3Facultad de Medicina Veterinaria y Zootecnia, Universidad Veracruzana, Veracruz, Veracruz 91710, México
4Campo Experimental La Posta, Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias, Medellín, Veracruz 94277, México
5Campo Experimental Santiago Ixcuintla, Instituto Nacional de Investigaciones Forestales, Agrícolas y Pecuarias, Santiago Ixcuintla, Nayarit 63570, México
Correspondence:  Moisés Montaño-Bermúdez, Tel: +55-38718700, Fax: +55-38718700, Email: montano.moises@inifap.gob.mx
Received: 25 November 2021   • Revised: 5 March 2022   • Accepted: 27 June 2022
Abstract
Objective
The objective of this study was to perform genome (GWAS) and chromosome (CWAS) wide association analyses to identify SNPs associated with growth traits in registered Simmental and Simbrah cattle.
Methods
The phenotypes were deregressed BLUP EBVs for birth weight (BW), weaning weight direct (WWD), weaning weight maternal (WWM) and yearling weight (YW). The genotyping was performed with the GGP Bovine 150k chip. After the quality control analysis, 105,129 autosomal SNP from 967 animals (473 Simmental and 494 Simbrah) were used to carry out genotype association tests. The two association analyses were performed per breed and using combined information of the two breeds. The SNP associated with growth traits were mapped to their corresponding genes at 100 kb on either side.
Results
A difference in magnitude of posterior probabilities was found across breeds between genome and chromosome wide association analyses. A total of 110, 143, and 302 SNP were associated with GWAS and CWAS for growth traits in the Simmental-, Simbrah- and joint -data analyses, respectively. It stands out from the enrichment analysis of the pathways for RNA polymerase (POLR2G, POLR3E) and GABAergic synapse (GABRR1, GABRR3) for Simmental cattle and p53 signaling pathway (BID, SERPINB5) for Simbrah cattle.

Conclusion

Only 6,265% of the markers associated with growth traits were found using CWAS and GWAS. The associated markers using the CWAS analysis, which were not associated using the GWAS, represents information that due to the model and priors was not associated with the traits.
Keywords: Genes; Growth Traits; GWAS; Simbrah; Simmental; SNP


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